Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	V	A	A	F	V	A	L	S	L	L	M	A	G	C	V	S	N	D	K	I	A	V	T	P	E	Q	L	Q	H	H	R	F	V	L	E	S	V	N	G	K	P	V	T	S	D	K	N	P	P	E	I	S	F	G	E	K	M
Secondary structure
SS confidence
Disorder		?																?	?	?	?	?	?	?	?	?	?	?	?	?	?	?												?	?	?	?	?	?	?	?								?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	I	S	G	S	M	C	N	R	F	S	G	E	G	K	L	S	N	G	E	L	T	A	K	G	L	A	M	T	R	M	M	C	A	N	P	Q	L	N	E	L	D	N	T	I	S	E	M	L	K	E	G	A	Q	V	D	L	T	A	N
Secondary structure
SS confidence
Disorder				?	?															?					?	?	?	?	?	?			?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140
Sequence		Q	L	T	L	A	T	A	K	Q	T	L	T	Y	K	L	A	D	L	M	N
Secondary structure
SS confidence
Disorder																	?	?	?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 2kts chain A Region: 25 - 140 Aligned: 116 Modelled: 116 Confidence: 100.0% Identity: 100% PDB header:chaperone Chain: A: PDB Molecule:heat shock protein hslj; PDBTitle: nmr structure of the protein np_415897.1 Phyre2 PDB 2la7 chain A Region: 18 - 136 Aligned: 118 Modelled: 119 Confidence: 99.9% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: nmr structure of the protein yp_557733.1 from burkholderia xenovorans Phyre2 PDB 2y6t chain E Region: 44 - 96 Aligned: 52 Modelled: 53 Confidence: 83.4% Identity: 23% PDB header:hydrolase/inhibitor Chain: E: PDB Molecule:ecotin; PDBTitle: molecular recognition of chymotrypsin by the serine2 protease inhibitor ecotin from yersinia pestis Phyre2 PDB 1ezs chain A Region: 44 - 96 Aligned: 52 Modelled: 53 Confidence: 81.9% Identity: 21% Fold: Ecotin, trypsin inhibitor Superfamily: Ecotin, trypsin inhibitor Family: Ecotin, trypsin inhibitor Phyre2 PDB 1xxf chain C Region: 44 - 96 Aligned: 52 Modelled: 53 Confidence: 78.5% Identity: 21% Fold: Ecotin, trypsin inhibitor Superfamily: Ecotin, trypsin inhibitor Family: Ecotin, trypsin inhibitor Phyre2 PDB 1slu chain A Region: 44 - 95 Aligned: 51 Modelled: 52 Confidence: 72.4% Identity: 22% Fold: Ecotin, trypsin inhibitor Superfamily: Ecotin, trypsin inhibitor Family: Ecotin, trypsin inhibitor Phyre2 PDB 1svb chain A domain 2 Region: 81 - 138 Aligned: 56 Modelled: 58 Confidence: 25.4% Identity: 13% Fold: Viral glycoprotein, central and dimerisation domains Superfamily: Viral glycoprotein, central and dimerisation domains Family: Viral glycoprotein, central and dimerisation domains Phyre2 PDB 1urz chain C Region: 81 - 138 Aligned: 56 Modelled: 58 Confidence: 21.1% Identity: 13% PDB header:virus/viral protein Chain: C: PDB Molecule:envelope protein; PDBTitle: low ph induced, membrane fusion conformation of the2 envelope protein of tick-borne encephalitis virus Phyre2 PDB 1rl6 chain A domain 1 Region: 109 - 140 Aligned: 32 Modelled: 32 Confidence: 20.7% Identity: 25% Fold: Ribosomal protein L6 Superfamily: Ribosomal protein L6 Family: Ribosomal protein L6 Phyre2 PDB 3ge2 chain A Region: 112 - 134 Aligned: 23 Modelled: 23 Confidence: 18.4% Identity: 9% PDB header:lipoprotein Chain: A: PDB Molecule:lipoprotein, putative; PDBTitle: crystal structure of putative lipoprotein sp_0198 from streptococcus2 pneumoniae Phyre2 PDB 2j01 chain H domain 1 Region: 110 - 140 Aligned: 31 Modelled: 31 Confidence: 17.9% Identity: 16% Fold: Ribosomal protein L6 Superfamily: Ribosomal protein L6 Family: Ribosomal protein L6 Phyre2 PDB 2hnx chain A domain 1 Region: 67 - 79 Aligned: 13 Modelled: 13 Confidence: 15.3% Identity: 38% Fold: Lipocalins Superfamily: Lipocalins Family: Fatty acid binding protein-like Phyre2 PDB 2of6 chain C Region: 81 - 127 Aligned: 45 Modelled: 47 Confidence: 13.6% Identity: 13% PDB header:virus Chain: C: PDB Molecule:envelope glycoprotein e; PDBTitle: structure of immature west nile virus Phyre2 PDB 2q9s chain A Region: 67 - 79 Aligned: 13 Modelled: 13 Confidence: 13.2% Identity: 38% PDB header:lipid binding protein Chain: A: PDB Molecule:fatty acid-binding protein; PDBTitle: linoleic acid bound to fatty acid binding protein 4 Phyre2 PDB 1jiw chain I Region: 111 - 133 Aligned: 23 Modelled: 23 Confidence: 11.6% Identity: 22% Fold: Streptavidin-like Superfamily: beta-Barrel protease inhibitors Family: Metalloprotease inhibitor Phyre2 PDB 2ot9 chain A domain 1 Region: 114 - 139 Aligned: 26 Modelled: 26 Confidence: 9.6% Identity: 12% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: YaeQ-like Phyre2 PDB 1p58 chain C Region: 81 - 136 Aligned: 51 Modelled: 56 Confidence: 9.1% Identity: 18% PDB header:virus Chain: C: PDB Molecule:major envelope protein e; PDBTitle: complex organization of dengue virus membrane proteins as revealed by2 9.5 angstrom cryo-em reconstruction Phyre2 PDB 3c0u chain A Region: 114 - 138 Aligned: 25 Modelled: 25 Confidence: 8.1% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yaeq; PDBTitle: crystal structure of e.coli yaeq protein Phyre2 PDB 1ok8 chain A domain 2 Region: 81 - 127 Aligned: 44 Modelled: 47 Confidence: 7.8% Identity: 16% Fold: Viral glycoprotein, central and dimerisation domains Superfamily: Viral glycoprotein, central and dimerisation domains Family: Viral glycoprotein, central and dimerisation domains Phyre2 PDB 2zjr chain E domain 2 Region: 109 - 140 Aligned: 32 Modelled: 32 Confidence: 7.2% Identity: 16% Fold: Ribosomal protein L6 Superfamily: Ribosomal protein L6 Family: Ribosomal protein L6 Phyre2 1 c2ktsA_ 2 c2la7A_ 3 c2y6tE_ 4 d1ezsa_ 5 d1xxfc_ 6 d1slua_ 7 d1svba2 8 c1urzC_ 9 d1rl6a1 10 c3ge2A_ 11 d2j01h1 12 d2hnxa1 13 c2of6C_ 14 c2q9sA_ 15 d1jiwi_ 16 d2ot9a1 17 c1p58C_ 18 c3c0uA_ 19 d1ok8a2 20 d2zjre2 21 22 23 24 25

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c2ktsA_ 100.0 100 PDB header:chaperone Chain: A: PDB Molecule:heat shock protein hslj; PDBTitle: nmr structure of the protein np_415897.1 2 c2la7A_ 99.9 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: nmr structure of the protein yp_557733.1 from burkholderia xenovorans 3 c2y6tE_ 83.4 23 PDB header:hydrolase/inhibitor Chain: E: PDB Molecule:ecotin; PDBTitle: molecular recognition of chymotrypsin by the serine2 protease inhibitor ecotin from yersinia pestis 4 d1ezsa_ 81.9 21 Fold:Ecotin, trypsin inhibitor Superfamily:Ecotin, trypsin inhibitor Family:Ecotin, trypsin inhibitor 5 d1xxfc_ 78.5 21 Fold:Ecotin, trypsin inhibitor Superfamily:Ecotin, trypsin inhibitor Family:Ecotin, trypsin inhibitor 6 d1slua_ 72.4 22 Fold:Ecotin, trypsin inhibitor Superfamily:Ecotin, trypsin inhibitor Family:Ecotin, trypsin inhibitor 7 d1svba2 25.4 13 Fold:Viral glycoprotein, central and dimerisation domains Superfamily:Viral glycoprotein, central and dimerisation domains Family:Viral glycoprotein, central and dimerisation domains 8 c1urzC_ 21.1 13 PDB header:virus/viral protein Chain: C: PDB Molecule:envelope protein; PDBTitle: low ph induced, membrane fusion conformation of the2 envelope protein of tick-borne encephalitis virus 9 d1rl6a1 20.7 25 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 10 c3ge2A_ 18.4 9 PDB header:lipoprotein Chain: A: PDB Molecule:lipoprotein, putative; PDBTitle: crystal structure of putative lipoprotein sp_0198 from streptococcus2 pneumoniae 11 d2j01h1 17.9 16 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 12 d2hnxa1 15.3 38 Fold:Lipocalins Superfamily:Lipocalins Family:Fatty acid binding protein-like 13 c2of6C_ 13.6 13 PDB header:virus Chain: C: PDB Molecule:envelope glycoprotein e; PDBTitle: structure of immature west nile virus 14 c2q9sA_ 13.2 38 PDB header:lipid binding protein Chain: A: PDB Molecule:fatty acid-binding protein; PDBTitle: linoleic acid bound to fatty acid binding protein 4 15 d1jiwi_ 11.6 22 Fold:Streptavidin-like Superfamily:beta-Barrel protease inhibitors Family:Metalloprotease inhibitor 16 d2ot9a1 9.6 12 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:YaeQ-like 17 c1p58C_ 9.1 18 PDB header:virus Chain: C: PDB Molecule:major envelope protein e; PDBTitle: complex organization of dengue virus membrane proteins as revealed by2 9.5 angstrom cryo-em reconstruction 18 c3c0uA_ 8.1 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yaeq; PDBTitle: crystal structure of e.coli yaeq protein 19 d1ok8a2 7.8 16 Fold:Viral glycoprotein, central and dimerisation domains Superfamily:Viral glycoprotein, central and dimerisation domains Family:Viral glycoprotein, central and dimerisation domains 20 d2zjre2 7.2 16 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 21 d2qamg1 not modelled 7.1 22 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 22 d1vqoe1 not modelled 7.0 14 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 23 d1g7na_ not modelled 7.0 14 Fold:Lipocalins Superfamily:Lipocalins Family:Fatty acid binding protein-like 24 d2g3wa1 not modelled 5.6 9 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:YaeQ-like 25 c3c6dB_ not modelled 5.2 16 PDB header:virus Chain: B: PDB Molecule:polyprotein; PDBTitle: the pseudo-atomic structure of dengue immature virus

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0